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Chromosoma (297)
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Hepperger, C., Otten, S., von Hase, J., & Dietzel, S. (2006). Preservation of large-scale chromatin structure in FISH experiments. Chromosoma, 116(2), 117–133.

Authors 4
  1. Claudia Hepperger (first)
  2. Simone Otten (additional)
  3. Johann von Hase (additional)
  4. Steffen Dietzel (additional)
References 50 Referenced 47
  1. Albiez H, Cremer M, Tiberi C, Vecchio L, Schermelleh L, Dittrich S, Küpper K, Joffe B, Thormeyer T, von Hase J, Yang S, Rohr K, Leonhardt H, Solovei I, Cremer C, Fakan S, Cremer T (2006) Chromatin domains and the interchromatin compartment form structurally defined and functionally interacting nuclear networks. Chromosome Res 14 (in press) (10.1007/s10577-006-1086-x)
  2. Belmont AS, Braunfeld MB, Sedat JW, Agard DA (1989) Large-scale chromatin structural domains within mitotic and interphase chromosomes in vivo and in vitro. Chromosoma 98:129–143 (10.1007/BF00291049) / Chromosoma by AS Belmont (1989)
  3. Boyle S, Gilchrist S, Bridger JM, Mahy NL, Ellis JA, Bickmore WA (2001) The spatial organization of human chromosomes within the nuclei of normal and emerin-mutant cells. Hum Mol Genet 10:211–219 (10.1093/hmg/10.3.211) / Hum Mol Genet by S Boyle (2001)
  4. Bridger JM, Boyle S, Kill IR, Bickmore WA (2000) Re-modelling of nuclear architecture in quiescent and senescent human fibroblasts. Curr Biol 10:149–152 (10.1016/S0960-9822(00)00312-2) / Curr Biol by JM Bridger (2000)
  5. Brown KE, Guest SS, Smale ST, Hahm K, Merkenschlager M, Fisher AG (1997) Association of transcriptionally silent genes with Ikaros complexes at centromeric heterochromatin. Cell 91:845–854 (10.1016/S0092-8674(00)80472-9) / Cell by KE Brown (1997)
  6. Chambeyron S, Bickmore WA (2004) Chromatin decondensation and nuclear reorganization of the HoxB locus upon induction of transcription. Genes Dev 18:1119–1130 (10.1101/gad.292104) / Genes Dev by S Chambeyron (2004)
  7. Cheng G, Thompson RP, Gourdie RG (1999) Improved detection reliability of beta-galactosidase in histological preparations. Biotechniques 27:438–440 (10.2144/99273bm08) / Biotechniques by G Cheng (1999)
  8. Cremer T, Kurz A, Zirbel R, Dietzel S, Rinke B, Schröck E, Speicher MR, Mathieu U, Jauch A, Emmerich P, Scherthan H, Ried T, Cremer C, Lichter P (1993) Role of chromosome territories in the functional compartmentalization of the cell nucleus. Cold Spring Harb Symp Quant Biol 58:777–792 (10.1101/SQB.1993.058.01.085) / Cold Spring Harb Symp Quant Biol by T Cremer (1993)
  9. Cremer M, von Hase J, Volm T, Brero A, Kreth G, Walter J, Fischer C, Solovei I, Cremer C, Cremer T (2001) Non-random radial higher-order chromatin arrangements in nuclei of diploid human cells. Chromosome Res 9:541–567 (10.1023/A:1012495201697) / Chromosome Res by M Cremer (2001)
  10. Cremer T, Küpper K, Dietzel S, Fakan S (2004) Higher order chromatin architecture in the cell nucleus: on the way from structure to function. Biol Cell 96:555–567 (10.1016/j.biolcel.2004.07.002) / Biol Cell by T Cremer (2004)
  11. Croft JA, Bridger JM, Boyle S, Perry P, Teague P, Bickmore WA (1999) Differences in the localization and morphology of chromosomes in the human nucleus. J Cell Biol 145:1119–1131 (10.1083/jcb.145.6.1119) / J Cell Biol by JA Croft (1999)
  12. Deng W, Tsao SW, Lucas JN, Leung CS, Cheung AL (2003) A new method for improving metaphase chromosome spreading. Cytometry A 51:46–51 (10.1002/cyto.a.10004) / Cytometry A by W Deng (2003)
  13. Dernburg AF, Sedat JW (1998) Mapping three-dimensional chromosome architecture in situ. In: Berrios M (ed) Methods in cell biology: nuclear structure and function. Academic, New York, pp 187–233 / Methods in cell biology: nuclear structure and function by AF Dernburg (1998)
  14. Dietzel S, Zolghadr K, Hepperger C, Belmont AS (2004) Differential large-scale chromatin compaction and intranuclear positioning of transcribed versus non-transcribed transgene arrays containing beta-globin regulatory sequences. J Cell Sci 117:4603–4614 (10.1242/jcs.01330) / J Cell Sci by S Dietzel (2004)
  15. Faust N, König S, Bonifer C, Sippel AE (1997) Transgene analysis in mouse embryonic stem cells differentiating in vitro. In: Adolph KW (ed) Human genome methods. CRC Press, Boca Raton, FL, pp 185–205 / Human genome methods by N Faust (1997)
  16. Foster HA, Bridger JM (2005) The genome and the nucleus: a marriage made by evolution. Genome organisation and nuclear architecture. Chromosoma 114:212–229 (10.1007/s00412-005-0016-6) / Chromosoma by HA Foster (2005)
  17. Fraschini A, Pellicciari C, Biggiogera M, Manfredi Romanini MG (1981) The effect of different fixatives on chromatin: cytochemical and ultrastructural approaches. Histochem J 13:763–769 (10.1007/BF01003288) / Histochem J by A Fraschini (1981)
  18. Guillot PV, Xie SQ, Hollinshead M, Pombo A (2004) Fixation-induced redistribution of hyperphosphorylated RNA polymerase II in the nucleus of human cells. Exp Cell Res 295:460–468 (10.1016/j.yexcr.2004.01.020) / Exp Cell Res by PV Guillot (2004)
  19. Hell SW, Stelzer EHK (1995) Lens aberations in confocal fluorescence microscopy. In: Pawley JB (ed) Handbook of biological confocal microscopy. Plenum, New York, pp 347–354 (10.1007/978-1-4757-5348-6_20) / Handbook of biological confocal microscopy by SW Hell (1995)
  20. Hendzel MJ, Bazett-Jones DP (1997) Fixation-dependent organization of core histones following DNA fluorescent in situ hybridization. Chromosoma 106:114–123 (10.1007/s004120050231) / Chromosoma by MJ Hendzel (1997)
  21. Hsu TC, Cooper JE, Mace ML Jr, Brinkley BR (1971) Arrangement of centromeres in mouse cells. Chromosoma 34:73–87 (10.1007/BF00285517) / Chromosoma by TC Hsu (1971)
  22. Kanda T, Sullivan KF, Wahl GM (1998) Histone-GFP fusion protein enables sensitive analysis of chromosome dynamics in living mammalian cells. Curr Biol 8:377–385 (10.1016/S0960-9822(98)70156-3) / Curr Biol by T Kanda (1998)
  23. Kiernan JA (2000) Formaldehyde, formalin, paraformaldehyde and glutaraldehyde: what they are and what they do. Microscopy Today 00-1:8–12 (10.1017/S1551929500057060) / Microscopy Today by JA Kiernan (2000)
  24. Kobliakova I, Zatsepina O, Stefanova V, Polyakov V, Kireev I (2005) The topology of early- and late-replicating chromatin in differentially decondensed chromosomes. Chromosome Res 13:169–181 (10.1007/s10577-005-0308-y) / Chromosome Res by I Kobliakova (2005)
  25. Kozubek S, Lukasova E, Amrichova J, Kozubek M, Liskova A, Slotova J (2000) Influence of cell fixation on chromatin topography. Anal Biochem 282:29–38 (10.1006/abio.2000.4538) / Anal Biochem by S Kozubek (2000)
  26. Kurz A, Lampel S, Nickolenko JE, Bradl J, Benner A, Zirbel RM, Cremer T, Lichter P (1996) Active and inactive genes localize preferentially in the periphery of chromosome territories. J Cell Biol 135:1195–1205 (10.1083/jcb.135.5.1195) / J Cell Biol by A Kurz (1996)
  27. Lawrence JB, Singer RH (1985) Quantitative analysis of in situ hybridization methods for the detection of actin gene expression. Nucleic Acids Res 13:1777–1799 (10.1093/nar/13.5.1777) / Nucleic Acids Res by JB Lawrence (1985)
  28. Linden E, Skoglund P, Rundquist I (1997) Accessibility of 7-aminoactinomycin D to lymphocyte nuclei after paraformaldehyde fixation. Cytometry 27:92–95 (10.1002/(SICI)1097-0320(19970101)27:1<92::AID-CYTO12>3.0.CO;2-N) / Cytometry by E Linden (1997)
  29. Mahy NL, Perry PE, Bickmore WA (2002a) Gene density and transcription influence the localization of chromatin outside of chromosome territories detectable by FISH. J Cell Biol 159:753–763 (10.1083/jcb.200207115) / J Cell Biol by NL Mahy (2002)
  30. Mahy NL, Perry PE, Gilchrist S, Baldock RA, Bickmore WA (2002b) Spatial organization of active and inactive genes and noncoding DNA within chromosome territories. J Cell Biol 157:579–589 (10.1083/jcb.200111071) / J Cell Biol by NL Mahy (2002)
  31. Mayer R, Brero A, von Hase J, Schroeder T, Cremer T, Dietzel S (2005) Common themes and cell type specific variations of higher order chromatin arrangements in the mouse. BMC Cell Biol 6:44 (10.1186/1471-2121-6-44) / BMC Cell Biol by R Mayer (2005)
  32. Mongelard F, Vourc’h C, Robert-Nicoud M, Usson Y (1999) Quantitative assessment of the alteration of chromatin during the course of FISH procedures. Fluorescent in situ hybridization. Cytometry 36:96–101 (10.1002/(SICI)1097-0320(19990601)36:2<96::AID-CYTO2>3.0.CO;2-X) / Cytometry by F Mongelard (1999)
  33. Nikiforova MN, Stringer JR, Blough R, Medvedovic M, Fagin JA, Nikiforov YE (2000) Proximity of chromosomal loci that participate in radiation-induced rearrangements in human cells. Science 290:138–141 (10.1126/science.290.5489.138) / Science by MN Nikiforova (2000)
  34. Osborne CS, Chakalova L, Brown KE, Carter D, Horton A, Debrand E, Goyenechea B, Mitchell JA, Lopes S, Reik W, Fraser P (2004) Active genes dynamically colocalize to shared sites of ongoing transcription. Nat Genet 36:1065–1071 (10.1038/ng1423) / Nat Genet by CS Osborne (2004)
  35. Raap AK, Marijnen JG, Vrolijk J, van der Ploeg M (1986) Denaturation, renaturation, and loss of DNA during in situ hybridization procedures. Cytometry 7:235–242 (10.1002/cyto.990070303) / Cytometry by AK Raap (1986)
  36. Rabbitts P, Impey H, Heppell-Parton A, Langford C, Tease C, Lowe N, Bailey D, Ferguson-Smith M, Carter N (1995) Chromosome specific paints from a high resolution flow karyotype of the mouse. Nat Genet 9:369–375 (10.1038/ng0495-369) / Nat Genet by P Rabbitts (1995)
  37. Robinett CC, Straight A, Li G, Willhelm C, Sudlow G, Murray A, Belmont AS (1996) In vivo localization of DNA sequences and visualization of large-scale chromatin organization using lac operator/repressor recognition. J Cell Biol 135:1685–1700 (10.1083/jcb.135.6.1685) / J Cell Biol by CC Robinett (1996)
  38. Roix JJ, McQueen PG, Munson PJ, Parada LA, Misteli T (2003) Spatial proximity of translocation-prone gene loci in human lymphomas. Nat Genet 34:287–291 (10.1038/ng1177) / Nat Genet by JJ Roix (2003)
  39. Shelby RD, Hahn KM, Sullivan KF (1996) Dynamic elastic behavior of alpha-satellite DNA domains visualized in situ in living human cells. J Cell Biol 135:545–557 (10.1083/jcb.135.3.545) / J Cell Biol by RD Shelby (1996)
  40. Solovei I, Cavallo A, Schermelleh L, Jaunin F, Scasselati C, Cmarko D, Cremer C, Fakan S, Cremer T (2002) Spatial preservation of nuclear chromatin architecture during three- dimensional fluorescence in situ hybridization (3D-FISH). Exp Cell Res 276:10–23 (10.1006/excr.2002.5513) / Exp Cell Res by I Solovei (2002)
  41. Spector DL (2003) The dynamics of chromosome organization and gene regulation. Annu Rev Biochem 72:573–608 (10.1146/annurev.biochem.72.121801.161724) / Annu Rev Biochem by DL Spector (2003)
  42. Sproul D, Gilbert N, Bickmore WA (2005) The role of chromatin structure in regulating the expression of clustered genes. Nat Rev Genet 6:775–781 (10.1038/nrg1688) / Nat Rev Genet by D Sproul (2005)
  43. Stadler S, Schnapp V, Mayer R, Stein S, Cremer C, Bonifer C, Cremer T, Dietzel S (2004) The architecture of chicken chromosome territories changes during differentiation. BMC Cell Biol 5:44 (10.1186/1471-2121-5-44) / BMC Cell Biol by S Stadler (2004)
  44. Sumner AT, Evans HJ, Buckland RA (1973) Mechanisms involved in the banding of chromosomes with quinacrine and Giemsa. I. The effects of fixation in methanol–acetic acid. Exp Cell Res 81:214–222 (10.1016/0014-4827(73)90128-6) / Exp Cell Res by AT Sumner (1973)
  45. Telenius H, Pelmear AH, Tunnacliffe A, Carter NP, Behmel A, Ferguson-Smith MA, Nordenskjold M, Pfragner R, Ponder BA (1992) Cytogenetic analysis by chromosome painting using DOP-PCR amplified flow-sorted chromosomes. Genes Chromosomes Cancer 4:257–263 (10.1002/gcc.2870040311) / Genes Chromosomes Cancer by H Telenius (1992)
  46. Verschure PJ, van Der Kraan I, Manders EM, van Driel R (1999) Spatial relationship between transcription sites and chromosome territories. J Cell Biol 147:13–24 (10.1083/jcb.147.1.13) / J Cell Biol by PJ Verschure (1999)
  47. Volpi EV, Chevret E, Jones T, Vatcheva R, Williamson J, Beck S, Campbell RD, Goldsworthy M, Powis SH, Ragoussis J, Trowsdale J, Sheer D (2000) Large-scale chromatin organization of the major histocompatibility complex and other regions of human chromosome 6 and its response to interferon in interphase nuclei. J Cell Sci 113:1565–1576 (10.1242/jcs.113.9.1565) / J Cell Sci by EV Volpi (2000)
  48. Williams RR, Broad S, Sheer D, Ragoussis J (2002) Subchromosomal positioning of the epidermal differentiation complex (EDC) in keratinocyte and lymphoblast interphase nuclei. Exp Cell Res 272:163–175 (10.1006/excr.2001.5400) / Exp Cell Res by RR Williams (2002)
  49. Yokota H, van den Engh G, Hearst JE, Sachs RK, Trask BJ (1995) Evidence for the organization of chromatin in megabase pair sized loops arranged along a random walk path in the human G0/G1 interphase nucleus. J Cell Biol 130:1239–1249 (10.1083/jcb.130.6.1239) / J Cell Biol by H Yokota (1995)
  50. Young IT (1977) Proof without prejudice:use of the Kolmogorov–Smirnov test for the analysis of histograms from flow systems and other sources. J Histochem Cytochem 25:935–941 (10.1177/25.7.894009) / J Histochem Cytochem by IT Young (1977)
Dates
Type When
Created 18 years, 9 months ago (Nov. 21, 2006, 10:39 a.m.)
Deposited 4 years ago (Aug. 4, 2021, 6:53 p.m.)
Indexed 9 months, 1 week ago (Nov. 19, 2024, 11:03 a.m.)
Issued 18 years, 9 months ago (Nov. 22, 2006)
Published 18 years, 9 months ago (Nov. 22, 2006)
Published Online 18 years, 9 months ago (Nov. 22, 2006)
Published Print 18 years, 4 months ago (April 1, 2007)
Funders 0

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@article{Hepperger_2006, title={Preservation of large-scale chromatin structure in FISH experiments}, volume={116}, ISSN={1432-0886}, url={http://dx.doi.org/10.1007/s00412-006-0084-2}, DOI={10.1007/s00412-006-0084-2}, number={2}, journal={Chromosoma}, publisher={Springer Science and Business Media LLC}, author={Hepperger, Claudia and Otten, Simone and von Hase, Johann and Dietzel, Steffen}, year={2006}, month=nov, pages={117–133} }